SMTL ID : 4jcz.1

Human LTC4 synthase in complex with product analogs - implications for enzyme catalysis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

homo-trimer

Ligands

3 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 5 residues within 4Å: Chain A: H.7 Chain B: H.7 Chain C: H.7 Ligands: NI.10, NI.19 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B Metal complexes: A:H.7, C:H.7, B:H.7 NI.10: 5 residues within 4Å: Chain A: H.7 Chain B: H.7 Chain C: H.7 Ligands: NI.1, NI.19 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain B Metal complexes: C:H.7, A:H.7, B:H.7 NI.19: 5 residues within 4Å: Chain A: H.7 Chain B: H.7 Chain C: H.7 Ligands: NI.1, NI.10 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A Metal complexes: B:H.7, C:H.7, A:H.7

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: R.54, S.106, A.107, Q.108 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.107, A:Q.108 Water bridges: A:R.54, A:R.54 Salt bridges: A:R.54 SO4.11: 4 residues within 4Å: Chain B: R.54, S.106, A.107, Q.108 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.107, B:Q.108 Water bridges: B:R.54, B:R.54 Salt bridges: B:R.54 SO4.20: 4 residues within 4Å: Chain C: R.54, S.106, A.107, Q.108 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:A.107, C:Q.108 Water bridges: C:R.54, C:R.54 Salt bridges: C:R.54

3 x PAM: PALMITOLEIC ACID(Non-covalent)

PAM.3: 10 residues within 4Å: Chain A: H.7, E.10, I.78 Chain C: H.6, H.7, K.8, L.70, W.74 Ligands: PAM.12, PAM.21 9 PLIP interactions: 3 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:H.7, A:I.78, C:H.7, C:L.70, C:W.74, C:W.74 Hydrogen bonds: A:E.10 Salt bridges: C:H.6, C:K.8 PAM.12: 10 residues within 4Å: Chain A: H.6, H.7, K.8, L.70, W.74 Chain B: H.7, E.10, I.78 Ligands: PAM.3, PAM.21 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:H.7, B:I.78, A:H.7, A:L.70, A:W.74, A:W.74 Hydrogen bonds: B:E.10 Salt bridges: A:H.6, A:K.8 PAM.21: 10 residues within 4Å: Chain B: H.6, H.7, K.8, L.70, W.74 Chain C: H.7, E.10, I.78 Ligands: PAM.3, PAM.12 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:H.7, C:I.78, B:H.7, B:L.70, B:W.74, B:W.74 Hydrogen bonds: C:E.10 Salt bridges: B:H.6, B:K.8

15 x PLM: PALMITIC ACID(Non-covalent)

PLM.4: 3 residues within 4Å: Chain A: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.141 PLM.5: 8 residues within 4Å: Chain A: A.129, L.132, L.133, F.136 Chain C: L.13, A.16 Ligands: PLM.7, PLM.8 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:L.132, A:L.133, A:F.136, A:F.136, C:L.13, C:A.16 PLM.6: 3 residues within 4Å: Chain A: L.20, Y.27, Q.101 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.20 PLM.7: 3 residues within 4Å: Chain C: G.83, L.87 Ligands: PLM.5 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.87 PLM.8: 2 residues within 4Å: Chain A: L.137 Ligands: PLM.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.137 PLM.13: 3 residues within 4Å: Chain B: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.141 PLM.14: 8 residues within 4Å: Chain A: L.13, A.16 Chain B: A.129, L.132, L.133, F.136 Ligands: PLM.16, PLM.17 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.132, B:L.133, B:F.136, B:F.136, A:L.13, A:A.16 PLM.15: 3 residues within 4Å: Chain B: L.20, Y.27, Q.101 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.20 PLM.16: 3 residues within 4Å: Chain A: G.83, L.87 Ligands: PLM.14 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.87 PLM.17: 2 residues within 4Å: Chain B: L.137 Ligands: PLM.14 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.137 PLM.22: 3 residues within 4Å: Chain C: P.138, L.141, R.142 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.141 PLM.23: 8 residues within 4Å: Chain B: L.13, A.16 Chain C: A.129, L.132, L.133, F.136 Ligands: PLM.25, PLM.26 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:L.132, C:L.133, C:F.136, C:F.136, B:L.13, B:A.16 PLM.24: 3 residues within 4Å: Chain C: L.20, Y.27, Q.101 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.20 PLM.25: 3 residues within 4Å: Chain B: G.83, L.87 Ligands: PLM.23 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.87 PLM.26: 2 residues within 4Å: Chain C: L.137 Ligands: PLM.23 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.137

3 x GTX: S-HEXYLGLUTATHIONE(Non-covalent)

GTX.9: 16 residues within 4Å: Chain A: N.61, E.64, Y.65, Y.99, R.110, L.114, L.121, W.122 Chain C: A.26, S.29, L.30, V.32, I.33, R.36, Y.56, Q.59 11 PLIP interactions: 4 interactions with chain C, 7 interactions with chain A Hydrophobic interactions: C:A.26, C:V.32, A:Y.65, A:L.121 Hydrogen bonds: C:S.29, A:N.61, A:E.64, A:Y.65 Salt bridges: C:R.36, A:R.110 Water bridges: A:R.110 GTX.18: 16 residues within 4Å: Chain A: A.26, S.29, L.30, V.32, I.33, R.36, Y.56, Q.59 Chain B: N.61, E.64, Y.65, Y.99, R.110, L.114, L.121, W.122 11 PLIP interactions: 4 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:A.26, A:V.32, B:Y.65, B:L.121 Hydrogen bonds: A:S.29, B:N.61, B:E.64, B:Y.65 Salt bridges: A:R.36, B:R.110 Water bridges: B:R.110 GTX.27: 16 residues within 4Å: Chain B: A.26, S.29, L.30, V.32, I.33, R.36, Y.56, Q.59 Chain C: N.61, E.64, Y.65, Y.99, R.110, L.114, L.121, W.122 12 PLIP interactions: 8 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:Y.65, C:L.121, B:A.26, B:V.32 Hydrogen bonds: C:N.61, C:E.64, C:Y.65, C:Y.99, B:S.29 Water bridges: C:R.110 Salt bridges: C:R.110, B:R.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niegowski, D. et al., Crystal Structures of Leukotriene C4 Synthase in Complex with Product Analogs: IMPLICATIONS FOR THE ENZYME MECHANISM. J.Biol.Chem. (2014)

Release Date

2014-01-01

Peptides

Leukotriene C4 synthase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Leukotriene C4 synthase

Related Entries With Identical Sequence